TABLE 3.

Microbial species identification after sequencing of the variable V6-V8 region of the 16S rRNA genes purified from PCR-DGGE profiles

BandaMediumClosest relative(s)Identity (%)GenBank accession no. of closest relative(s)GenBank accession no. of sequence
1Pseudomonas agar Pseudomonas spp.b100 AY900171 DQ405232
2Pseudomonas agar Pseudomonas putida/P. fragi/P. syringae98 AY450557 / AF094733 / AJ576247 DQ405233
3Pseudomonas agar Pseudomonas putida/P. fragi/P. syringae 100 AY450557 / AF094733 / AJ576247 DQ405234
4Pseudomonas agar Serratia proteamaculans 99 AJ233435 DQ405235
5Pseudomonas agar Pseudomonas putida/P. fragi/P. syringae 100 AY450557 /AF094733/AJ576247 DQ405236
6Pseudomonas agar Rahnella spp.99 U88439 DQ405237
7VRBGA Pantoea ananatis 98 DQ133546 DQ405238
8VRBGA Enterobacter agglomerans 99 AF130952 DQ405239
9VRBGA Serratia grimesii 100 AY789460 DQ405240
10VRBGA Pseudomonas spp.99 AY689082 DQ405241
11VRBGA Serratia proteamaculans 99 AY902209 DQ405242
12VRBGA Pseudomonas spp.99 AY625608 DQ405243
13VRBGAUncultured Serratia100 DQ279304 DQ405244
14VRBGA Rahnella aquatilis 99 AY253920 DQ405245
15VRBGA Rahnella spp.99 U88439 DQ405246
16VRBGA Rahnella spp.99 U88434 DQ405247
17MRS agar Carnobacterium divergens 99 AY543037 DQ405248
18MRS agar Lactobacillus graminis 99 AM113778 DQ405249
19MRS agar Weissella hellenica 100 UB023240 DQ405250
20MRS agar Weissella hellenica 100 UB023240 DQ405251
21MRS agar Lactobacillus sakei 99 AM113784 DQ405252
22MRS agar Leuconostoc kimchii 100 AF173986 DQ405253
23MRS agar Leuconostoc carnosum 100 UB022925 DQ405254
24MRS agar Rahnella spp.99 U88439 DQ405255
25STAA Brochothrix thermosphacta 99 AY543029 DQ405256
26Beef Pseudomonas putida/P. fragi/P. syringae 97 AY450557 /AF094733/AJ576247 DQ405257
27Beef Carnobacterium divergens 98 AY543037 DQ405258
28Beef Brochothrix thermosphacta 98 AY543029 DQ405259
29Beef Hafnia alvei 99 M59155 DQ405260
30Beef Staphylococcus xylosus/S. succinus/ S. saprophyticus/S. cohnii 98 AF515587 /AY748916 /AP008934 /AY161046 DQ405261
  • a Bands 1 to 30 are indicated in Fig. 3.

  • b When the sequence showed the same homology with more than four species of Pseudomonas, the result was reported as Pseudomonas spp.